Subramaniam, S., Akay, M., Anastasio, M.A., Bailey, B., Boas, D., Bonato, P., Chilkoti, A., Cochran, J.R., Colvin, V., Desai, T.A., Duncan, J.S., Epstein, F.H., Fraley, S., Giachelli, C., Grande-Allen, K.J., Green, J., Guo, X.E., Hilton, I.B., Humphrey, J.D., Johnson, C.R., Karniadakis, G., King, M.R., Kirsch, R.F., Kumar, S., Laurencin, C.T., Li, S., Lieber, R.L., Lovell, N., Mali, P., Margulies, S.S., Meaney, D.F., Ogle, B., Palsson, B., Peppas, N.A., Perreault, E.J., Rabbitt, R., Setton, L.A., Shea, L.D., Shroff, S.G., Shung, K., Tolias, A., S., van der Meulen, M.C.H., Varghese, S., Vunjak-Novakovic, G., White, J.A., Winslow, R., Zhang, J., Zhang, K., Zukoski, C., and Miller, M.I.* Grand Challenges at the Interface of Engineering and Medicine. IEEE Open Journal of Engineering in Medicine and Biology (2024).
Mahata, B., Cabrera, A., Brenner, D.A., Guerra-Resendez, R.S., Li., J., Goell, J., Wang, K., Guo, Y., Escobar, M., Parthasarathy, A.K., Szadowski, H., Bedford, G., Reed, D., Kim, S., and Hilton, I.B.* Compact engineered human mechanosensitive transactivation modules enable potent and versatile synthetic transcriptional control. Nature Methods (2023).
Schreib, C.C., Jarvis, M.I., Terlier, T., Goell, J., Mukherjee, S., Doerfert, M.D., Wilson, T.A., Beauregard, M., Martins, K.N., Lee, J., Solis, L.S., Vazquez, E., Oberli, M.A., Hanak, B.W., Diehl, M., Hilton, I.B., and Veiseh., O.*. Lipid Deposition Profiles Influence Foreign Body Responses. Advanced Materials (2023).
Zhao, F., Sun, C., Liu, Z., Cabrera, A., Escobar, M., Huang, S., Yuan, Q., Nie, Q., Lee, K., Lin, A.L., Vanegas, J. A., Zhu, T., Hilton, I.B., and Gao, X.*. Multiplex Base-Editing Enables Combinatorial Epigenetic Regulation for Genome Mining of Fungal Natural Products. Journal of the American Chemistry Society (2023).
Cabrera, A., Edelstein, H.I, Glykofrydis, F., Love, K.S., Palacios, S., Tycko, J., Zhang, M., Lensch, S., Shields, C.E., Livingston, M., Weiss, R., Zhao, H., Haynes, K.A., Morsut, L., Chen, Y.Y., Khalil, A.S., Wong, W.W., Collins, J.J., Rosser, S.J., Polizzi, K., Elowitz, M.B., Fussenegger, M., Hilton, I.B., Leonard, J.N., Bintu, L., Galloway, K.E., and Deans, T.L.*. The sound of silence: Transgene silencing in mammalian cell engineering. Cell Systems (2023).
Reed, K.S.M., Davis, E.S., Bond, M.L., Cabrera, A., Thulson, E., Quiroga, I.Y., Cassel, S., Woolery, K.T., Hilton, I.B., Won, H., Love, M.I., and Phanstiel, D.H., Temporal analysis suggests a reciprocal relationship between 3D chromatin structure and transcription. Cell Reports (2022).
*bioRxiv preprint here
Guerra-Resendez, R.S., Brenner, D., and Hilton, I.B., Tuning neurodegeneration-linked gene expression, one (edited) base at a time. Molecular Therapy (2022).
Escobar, M.*, Li, J.*, Patel, A., Liu, S., Xu, Q., and Hilton, I.B., Quantification of Genome Editing and Transcriptional Control Capabilities Reveals Hierarchies among Diverse CRISPR/Cas Systems in Human Cells . ACS Synthetic Biology (2022). *Equal Contribution
Wang, K., Escobar, M., Li, J., Mahata, B., Goell, J., Shah, S., Cluck, M. and Hilton, I.B., Systematic comparison of CRISPR-based transcriptional activators uncovers gene-regulatory features of enhancer–promoter interactions. Nucleic Acids Research (2022).
Bashor, C.J.*, Hilton, I.B.*, Bandukwala, H., Smith, D.M., and Veiseh, O.*, Engineering the next generation of cell-based therapeutics. Nature Reviews Drug Discovery (2022). *Co-corresponding Authors and Equal Contribution
Guerra-Resendez, R.S. and Hilton, I.B., Harnessing CRISPR-Cas9 for Epigenetic Engineering. Methods Mol. Biol. (2022).
Mahata, B., Li J., Cabrera, A., Brenner, D.A., Guerra-Resendez, R.S., Goell, J., Wang, K., Escobar, M., Guo, Y., Parthasarathy, A.K., and Hilton, I.B., Compact engineered human transactivation modules enable potent and versatile synthetic transcriptional control. bioRxiv (2022).
Gemberling, M.P.*, Siklenka, K*, Rodriguez, E., Tonn-Eisinger, K.R., Barrera, A., Liu, F., Kantor, A., Li, L., Cigliola, V., Hazlett, M.F., Williams, C.A., Bartelt, L.C., Madigan, V.J., Bodle, J.C., Daniels, H., Rouse, D.C., Hilton, I.B., Asokan, A., Ciofani, M., Poss, K.D., Reddy, T.E., West A.E., and Gersbach, C.A., Transgenic mice for in vivo epigenome editing with CRISPR-based systems. Nature Methods (2021) *Equal Contribution
Abhimanyu, Ontiveros, O.C., Guerra-Resendez, R.S., Nishiguchi, T., Ladki, M., Hilton, I.B., Schlesinger, L.S., and DiNardo, A.R., Reversing Post-Infectious Epigenetic-Mediated Immune Suppression. Frontiers in Immunology (2021).
Goell, J. and Hilton, I.B., CRISPR/Cas-Based Epigenome Editing: Advances, Applications, and Clinical Utility. Trends in Biotechnology (2021).
Li, J., Mahata, B., Escobar, M., Goell, J., Wang, K., Khemka, P., and Hilton, I.B., Programmable human histone phosphorylation and gene activation using a CRISPR/Cas9-based chromatin kinase. Nature Communications (2021).
Lee, S.*, Ding, N.*, Sun, Y., Yuan, T., Li, J., Yuan, Q., Liu, L., Yang, J., Wang, Q., Kolomeisky, A.B., Hilton, I.B., Zuo, E., and Gao, X., Single C-to-T substitution using engineered APOBEC3G-nCas9 base editors with minimum genome- and transcriptome-wide off-target effects. Science Advances (2020). *Equal Contribution
Klann, T.K., Black, J.B., Chellappan, M., Safi, A., Song, L., Hilton, I.B., Crawford, G.E, Reddy, T.E., and Gersbach, C.A., CRISPR-Cas9 epigenome editing enables high-throughput screening for functional regulatory elements in the human genome. Nature Biotechnology (2017).
Hilton, I.B., and Gersbach, C.A., Genetic engineering: Chemical control for CRISPR editing. Nature Chemical Biology (2017).
Thakore, P.I., Black, J.B., Hilton, I.B., and Gersbach, C.A., Editing the epigenome: technologies for programmable transcription and epigenetic modulation. Nature Methods (2016).
Hilton, I.B., and Gersbach, C.A., Enabling functional genomics with genome engineering. Genome Research (2015).
Hilton, I.B., D’Ippolito, A.M., Vockley, C.M., Thakore, P.I., Crawford, G.E., Reddy, T.E., and Gersbach, C.A., Epigenome editing by a CRISPR/Cas9-based acetyltransferase activates genes from promoters and enhancers. Nature Biotechnology (2015).
Kabadi, A.M.*, Ousterout, D.G.*, Hilton, I.B., and Gersbach, C.A., Multiplex CRISPR/Cas9-based genome engineering from a single lentiviral vector. Nucleic Acids Research (2014). *Equal Contribution
Hilton, I.B., Simon, J.M., Lieb, J.D., Davis J.I., Damania, B., and Dittmer, D.P., The open chromatin landscape of Kaposi’s sarcoma-associated herpesvirus. Journal of Virology (2013).
Roy, D., Sin, S.H., Lucas, A., Venkataramanan, R., Wang, L., Eason A., Veenadhari, C., Hilton, I.B., Damania, B., and Dittmer, D.P., mTOR inhibitors block Kaposi sarcoma growth by inhibiting essential autocrine growth factors and tumor angiogenesis. Cancer Research (2013).
Hilton, I.B., and Dittmer, D.P., Quantitative analysis of the bidirectional viral G-protein-coupled receptor and lytic latency-associated nuclear antigen promoter of Kaposi’s sarcoma-associated herpesvirus. Journal of Virology (2012).
Chen, W., Hilton, I.B., Staudt, M.R., Burd, C.E., and Dittmer, D.P., Distinct p53, p53:LANA, and LANA complexes in Kaposi’s sarcoma-associated herpesvirus lymphomas. Journal of Virology (2010).